Detailed information of TA system TA209250

Bioinformatically predicted

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/VapC-VagC
• Location: 162439..163082
• Replicon: plasmid pS465_P1
• Accession: NZ_CP079116
• Organism: Klebsiella pneumoniae subsp. pneumoniae strain WRC01_S465PC

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: A0A5Q9LNG2
• Locus tag: KWK18_RS27855
• Protein ID: WP_048983057.1
• Coordinates: 162666..163082 (+)
• Length: 139 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: R4IT22
• Locus tag: KWK18_RS27850
• Protein ID: WP_016338373.1
• Coordinates: 162439..162669 (+)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
KWK18_RS27830 (KWK18_27830)	159013..159768	-	756	WP_000852146.1	replication initiation protein RepE	-
KWK18_RS27835 (KWK18_27835)	160542..161348	-	807	WP_000016982.1	site-specific integrase	-
KWK18_RS27840 (KWK18_27840)	161349..161654	-	306	WP_001159868.1	type II toxin-antitoxin system toxin CcdB	-
KWK18_RS27845 (KWK18_27845)	161656..161874	-	219	WP_000813634.1	type II toxin-antitoxin system antitoxin CcdA	-
KWK18_RS27850 (KWK18_27850)	162439..162669	+	231	WP_016338373.1	type II toxin-antitoxin system VapB family antitoxin	Antitoxin
KWK18_RS27855 (KWK18_27855)	162666..163082	+	417	WP_048983057.1	type II toxin-antitoxin system VapC family toxin	Toxin
KWK18_RS28435	163123..163446	-	324	WP_085842301.1	hypothetical protein	-
KWK18_RS28440	163464..164000	-	537	WP_223825639.1	hypothetical protein	-
KWK18_RS27865 (KWK18_27865)	164659..165936	+	1278	WP_016338369.1	HlyD family secretion protein	-
KWK18_RS27870 (KWK18_27870)	165926..168034	+	2109	WP_016338368.1	peptidase domain-containing ABC transporter	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	blaCMY-4 / dfrA12 / aadA2 / qacE / sul1 / armA / msr(E) / mph(E) / blaOXA-1 / aac(6')-Ib-cr / qnrB1 / tet(D) / blaTEM-1B	-	1..210997	210997

Relative position:
(1) inside: TA loci is completely located inside the MGE;
(2) overlap: TA loci is partially overlapped with the MGE;
(3) flank: The TA loci is located in the 5 kb flanking regions of MGE.

Domains

Predicted by InterproScan

Toxin

• PIN domain (6-129)

Antitoxin

• SpoVT-AbrB domain (7-50)

Sequences

Toxin

Protein

• Length: 139 a.a.
• Molecular weight: 15022.52 Da
• Isoelectric Point: 9.2957

>T209250 WP_048983057.1 NZ_CP079116:162666-163082 [Klebsiella pneumoniae subsp. pneumoniae]
MKKTWMLDTNICSFIMREQPAAVLKRLEQAVLRGDRIVVSAVTYAEMRFGATGPKASPRHIQLVDAFCARLDAILPWDRA
AVDATTDIRVALRLAGTPIGPNDTAIAGHAIAAGAILVTNNTREFARVPGLVLEDWVK

Nucleotide

• Length: 417 bp

>T209250 NZ_CP103974:c3889390-3888992 [Escherichia coli]
ATGCGGGTATTCAAAACAAAACTTATTCGCCTGCAACTTACAGCAGAGGAACTTGATGCGTTAACGGCGGATTTTATTTC
CTATAAGCGTGACGGTGTTTTGCCAGATATATTTGGTCGCGATGCACTCTACGACGACTCCTTTACCTGGCCATTAATCA
AATTTGAGCGAGTTGCTCATATTCATCTGGCAAATGAGAATAATCCATTTCCGCCACAGTTGCGCCAATTCAGCAGAACG
AATGACGAAGCGCATTTGGTATATTGTCAGGAGGCGTTTGATGAGCAAGCATGGTTGCTCATTGCCATTCTGAAACCTGA
ACCTCATAAACTGGCTCGAGATAACAACCAAATGCATAAAATTGGGAAAATGGCAGAAGCGTTTCGCATGCGTTTTTGA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8751.77 Da
• Isoelectric Point: 4.3533

>AT209250 WP_016338373.1 NZ_CP079116:162439-162669 [Klebsiella pneumoniae subsp. pneumoniae]
MRTVSIFKNGNNRAIRLPRDLDFDGVSELEIVREGDSIILRPVRPTWSSFAQLDRADPDFMAEREDVVSDEGRFEP

Nucleotide

• Length: 231 bp

>AT209250 NZ_CP103974:c3889686-3889393 [Escherichia coli]
ATGCATCGAATTCTCGCTGAAAAATCGGTCAATATCACTGAGTTACGTAAAAACCCAGCTAAATACTTTATTGATCAACC
GGTTGCGGTTCTTTCTAATAATCGCCCCGCAGGATATCTCTTAAGTGCCAGCGCATTCGAAGCGTTAATGGACATGCTTG
CTGAACAAGAGGAGAAAAAGCCCATAAAGGCGCGCTTCCGTCCAAGTGCTGCAAGATTAGAGGAAATTACACGCCGCGCT
GAACAATATCTTAATGATATGACGGATGATGATTTCAATGACTTTAAGGAATAA

Structures

Toxin

• AlphaFold DB: A0A5Q9LNG2

Antitoxin

• AlphaFold DB: A0A5Q9LN61